基于全基因组关联分析挖掘小麦耐草甘膦相关QTL

doi:10.7668/hbnxb.20194672

摘要/Abstract

摘要：

草甘膦是目前使用最广泛的广谱灭生性除草剂,培育耐草甘膦作物将有助于改善农田杂草化学防控效果、减少用药量和简化防控措施。为充分挖掘小麦耐草甘膦基因位点,利用来自黄淮麦区的484份种质资源进行草甘膦耐药性鉴定,根据小麦15K SNP芯片数据,采用全基因组关联分析的方法,挖掘与小麦草甘膦耐药性相关QTL。结果显示,不同年代培育的小麦品种草甘膦耐药性的变化趋势缓慢,草甘膦耐受性未显著提升;根据表型鉴定结果,筛选出黄淮麦区耐草甘膦小麦种质材料3份,即河农130、冀麦782和泰山23号;利用全基因组关联分析方法,检测到与小麦草甘膦耐药等级显著相关的QTL 7个,包含19个显著性SNPs,分布于小麦1A(0.00~30.48 Mb)、1B(6.57~30.57 Mb)、1D(0.00~22.98 Mb)、4A(656.09~680.09 Mb)、5A(508.19~532.19 Mb)、6A(54.56~85.09 Mb)和6D(12.02~36.02 Mb)染色体上;位于小麦1A和6A染色体上的2个QTL qGlyT-1A和qGlyT-6A是小麦耐草甘膦的主效位点,共包含16个可能与小麦耐草甘膦相关的基因。

关键词: 小麦, 黄淮麦区, 草甘膦耐受性, 全基因组关联分析

Abstract:

Glyphosate is currently the most widely used broad-spectrum herbicide.Cultivating glyphosate tolerant crops will help improve the effectiveness of chemical control on weed in farmlands,reduce the use of pesticide,and simplify preventive and control measures.To fully detect the glyphosate tolerance(GT)loci in wheat,484 germplasm resources from the Huang-huai wheat region were used to identify glyphosate toxicity.Based on the wheat 15K SNP array data,genome-wide association analysis(GWAS)was used to explore QTL related to glyphosate tolerance in wheat.The main results were as follows:the trend of changes in glyphosate tolerance of wheat varieties cultivated in different eras was slow,and the glyphosate tolerance had not significantly improved;three glyphosate tolerant wheat germplasms(including Henong 130,Jimai 782 and Taishan 23)were selected based on the phenotypic identification results of pesticide damage;seven QTL associated with the level of wheat pesticide damage were detected by GWAS,including 19 significant SNPs,distributed on wheat chromosomes 1A(0.00—30.48 Mb),1B(6.57—30.57 Mb),1D(0.00—22.98 Mb),4A(656.09—680.09 Mb),5A(508.19—532.19 Mb),6A(54.56—85.09 Mb),and 6D(12.02—36.02 Mb);the two QTL qGlyT-1A and qGlyT-6A located on wheat chromosomes 1A and 6A were the main effector sites for glyphosate tolerance in wheat,containing a total of 16 genes that may be related to glyphosate tolerance in wheat.

Key words: Wheat, Huang-huai wheat region, Glyphosate tolerance, Genome-wide association analysis

赵杰, 牟丽明, 胡梦芸, 孙丽静, 李倩影, 王培楠, 李辉, 刘小民, 张颖君. 基于全基因组关联分析挖掘小麦耐草甘膦相关QTL[J]. 华北农学报, 2024, 39(3): 1-7. doi: 10.7668/hbnxb.20194672.

ZHAO Jie, MU Liming, HU Mengyun, SUN Lijing, LI Qianying, WANG Peinan, LI Hui, LIU Xiaomin, ZHANG Yingjun. Detecting Glyphosate Tolerant QTL in Wheat Based on Genome-wide Association Analysis[J]. Acta Agriculturae Boreali-Sinica, 2024, 39(3): 1-7. doi: 10.7668/hbnxb.20194672.

http://www.hbnxb.net/CN/Y2024/V39/I3/1

图/表 7

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药害等级 Pesticide damage level	小麦草甘膦药害表型 Glyphosate tolerant phenotype in wheat
1级	只有小麦叶尖发黄,处理比对照植株株高稍矮
2级	小麦1/3以下叶片发黄,处理植株高度高于对照株高1/2
3级	小麦1/2叶片发黄,处理株高度高于对照的一半株高
4级	小麦2/3叶片发黄,处理株高明显矮于对照株高
5级	小麦大部分叶片发黄,叶片开始枯萎
6级	小麦植株枯萎、死亡

药害等级 Pesticide damage level	小麦草甘膦药害表型 Glyphosate tolerant phenotype in wheat
1级	只有小麦叶尖发黄,处理比对照植株株高稍矮
2级	小麦1/3以下叶片发黄,处理植株高度高于对照株高1/2
3级	小麦1/2叶片发黄,处理株高度高于对照的一半株高
4级	小麦2/3叶片发黄,处理株高明显矮于对照株高
5级	小麦大部分叶片发黄,叶片开始枯萎
6级	小麦植株枯萎、死亡

数量性状基因座QTL	显著性SNP位点 Significant SNP	染色体 Chromosome	物理位置/Mb Position	显著性值 P value	可解释表型变异/%R²
qGlyT-1A	AX-108779844	1A	9.98	3.30E-04	2.64
	AX-110523831	1A	15.18	5.90E-05	3.32
	AX-108966198	1A	16.03	7.49E-04	2.33
	AX-111125144	1A	18.48	1.88E-04	2.86
qGlyT-1B	AX-95089648	1B	18.57	9.20E-04	2.25
qGlyT-1D	AX-94809631	1D	18.57	9.93E-04	2.22
qGlyT-4A	AX-109519189	4A	668.09	5.75E-04	2.43
qGlyT-5A	AX-110418750	5A	520.19	4.42E-04	2.53
qGlyT-6A	AX-109933415	6A	66.56	7.94E-04	2.30
	AX-109520642	6A	67.34	3.31E-04	2.64
	AX-111490517	6A	67.46	6.07E-04	2.41
	AX-110445351	6A	68.42	7.85E-04	2.31
	AX-108988699	6A	68.62	6.63E-04	2.37
	AX-109563646	6A	70.56	9.97E-04	2.22
	AX-108987721	6A	70.57	7.24E-04	2.34
	AX-109469598	6A	71.05	5.86E-04	2.42
	AX-109478914	6A	72.30	3.76E-04	2.59
	AX-108852271	6A	73.09	8.83E-04	2.26
qGlyT-6D	AX-110382511	6D	24.02	7.27E-04	2.34

数量性状基因座QTL	显著性SNP位点 Significant SNP	染色体 Chromosome	物理位置/Mb Position	显著性值 P value	可解释表型变异/%R²
qGlyT-1A	AX-108779844	1A	9.98	3.30E-04	2.64
	AX-110523831	1A	15.18	5.90E-05	3.32
	AX-108966198	1A	16.03	7.49E-04	2.33
	AX-111125144	1A	18.48	1.88E-04	2.86
qGlyT-1B	AX-95089648	1B	18.57	9.20E-04	2.25
qGlyT-1D	AX-94809631	1D	18.57	9.93E-04	2.22
qGlyT-4A	AX-109519189	4A	668.09	5.75E-04	2.43
qGlyT-5A	AX-110418750	5A	520.19	4.42E-04	2.53
qGlyT-6A	AX-109933415	6A	66.56	7.94E-04	2.30
	AX-109520642	6A	67.34	3.31E-04	2.64
	AX-111490517	6A	67.46	6.07E-04	2.41
	AX-110445351	6A	68.42	7.85E-04	2.31
	AX-108988699	6A	68.62	6.63E-04	2.37
	AX-109563646	6A	70.56	9.97E-04	2.22
	AX-108987721	6A	70.57	7.24E-04	2.34
	AX-109469598	6A	71.05	5.86E-04	2.42
	AX-109478914	6A	72.30	3.76E-04	2.59
	AX-108852271	6A	73.09	8.83E-04	2.26
qGlyT-6D	AX-110382511	6D	24.02	7.27E-04	2.34

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